Fig. 3: Kupffer cells in late-stage granulomas are CLEC4F^- and are located outside the sinusoids.

a–c Representative live images from naïve (a), 19-day (b) and 42-day (c) infected Clec4f^Cre-TdTZsGreen mice, showing Clec4f active expression (red) and Clec4f previous expression (green). Scale bars, 100 μm. d Frequency of tdTomato⁺ cells identified in ZsGreen⁺ granulomas at 19 and 42 d.p.i. Data pooled from live imaging carried out in 4 independent experiments (n = 2 for 19 d.p.i. and n = 2 for 42 d.p.i.). Values represent mean ± SD. P-values were obtained using a two-tailed unpaired t test. e Sinusoid distribution from images (a–c), visualized by CD31 staining (magenta). Scale bars, 100 μm. f Representative images showing a tdTomato⁺ZsGreen⁺ cluster (red and green) and the sinusoids (magenta) at 19 d.p.i. Scale bars, 20 μm. g Representative images showing tdTomato^-ZsGreen⁺ clusters (green) and the sinusoids (magenta) at 42 d.p.i. Scale bars, 50 μm. h Images of Clec4f^Cre-TdTZsGreen mice at 19 and 42 d.p.i., showing Clec4f active expression (red), Clec4f previous expression (green), F4/80 (cyan), and sinusoids (magenta). Scale bars, 200 μm. Inset 1, the dotted line indicates a small cluster of F4/80⁺tdTomato⁺ZsGreen⁺KCs in contact with intact sinusoids. Scale bars, 20 μm. Insets 2 and 3 show tdTomato^-ZsGreen⁺ clusters outside the sinusoids. Arrows point to tdTomato⁺ZsGreen⁺ F4/80⁺ or F4/80⁻ KCs within granulomas, next to or in contact with the sinusoids. Scale bars, 15 μm. Source data are provided as a Source Data file.